Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008298.1 Hibiscus syriacus cultivar Beakdansim tig00110984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1334650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:2310 original size:22 final size:21
Alignment explanation
Indices: 2262--2322 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
2252 ATTCCCCTGT
*
2262 GGGGGGAATCGGTCCCCTTCAA
1 GGGGGGAATCGGTTCCC-TCAA
*
2284 AGGGGGAATCGGTTCCCTC-A
1 GGGGGGAATCGGTTCCCTCAA
* *
2304 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
2323 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 15 0.44
ACGTcount: A:0.16, C:0.26, G:0.38, T:0.20
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:2314 original size:20 final size:20
Alignment explanation
Indices: 2239--2322 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
2229 AACAGAACCC
*
2239 CAGGGGGGTATCGATTCCC-
1 CAGGGGGGGATCGATTCCCT
* * *
2258 CTGTGGGGGGAATCGGTCCCCTT
1 CAG-GGGGGG-ATCGATTCCC-T
* * *
2281 CAAAGGGGGAATCGGTTCCCT
1 C-AGGGGGGGATCGATTCCCT
2302 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGGATCGATTCCCT
2322 C
1 C
2323 TGCACCAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
19 2 0.04
20 22 0.45
21 10 0.20
22 9 0.18
23 6 0.12
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.21
Consensus pattern (20 bp):
CAGGGGGGGATCGATTCCCT
Found at i:8783 original size:12 final size:12
Alignment explanation
Indices: 8768--8801 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
8758 GCTGGAGACA
8768 TGGGCACGACTC
1 TGGGCACGACTC
8780 TGGGCACGACTC
1 TGGGCACGACTC
8792 TGGGCACGAC
1 TGGGCACGAC
8802 ACGGTCTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (12 bp):
TGGGCACGACTC
Found at i:9096 original size:22 final size:22
Alignment explanation
Indices: 9068--9109 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9058 AGTTTTATTA
*
9068 AAGTTTTCTCTTTTTACTTTTC
1 AAGTTTTCCCTTTTTACTTTTC
*
9090 AAGTTTTCCCTTTTTTCTTT
1 AAGTTTTCCCTTTTTACTTT
9110 ATTTTCAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
AAGTTTTCCCTTTTTACTTTTC
Found at i:10618 original size:17 final size:16
Alignment explanation
Indices: 10592--10623 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10582 TTCCGTTATA
10592 TTTTATTTTATTTTTT
1 TTTTATTTTATTTTTT
10608 TTTTCATTTTATTTTT
1 TTTT-ATTTTATTTTT
10624 ATTCATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTTTATTTTTT
Found at i:16222 original size:20 final size:20
Alignment explanation
Indices: 16176--16229 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
16166 GTCGAGGGTT
16176 CATAGGTCCTTCGGGACAAA
1 CATAGGTCCTTCGGGACAAA
* *
16196 CAGAGGTCCTTCGGGACATA
1 CATAGGTCCTTCGGGACAAA
* *
16216 TATAGGTCATTCGG
1 CATAGGTCCTTCGG
16230 AAAAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (20 bp):
CATAGGTCCTTCGGGACAAA
Found at i:16316 original size:16 final size:17
Alignment explanation
Indices: 16295--16328 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16285 GTGCACAACC
16295 TCTAT-GTACTCACATA
1 TCTATGGTACTCACATA
*
16311 TCTATGGTTCTCACATA
1 TCTATGGTACTCACATA
16328 T
1 T
16329 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (17 bp):
TCTATGGTACTCACATA
Found at i:25205 original size:33 final size:33
Alignment explanation
Indices: 25168--25234 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
25158 CGCAGAGGAT
*
25168 GCATCCA-CACCATCTGTTGCAGCAGACCTTCGA
1 GCATCCACCA-CATCTGTTGCAACAGACCTTCGA
25201 GCATCCACCACATCTGTTGCAACAGACCTTCGA
1 GCATCCACCACATCTGTTGCAACAGACCTTCGA
25234 G
1 G
25235 GTCGCCTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (33 bp):
GCATCCACCACATCTGTTGCAACAGACCTTCGA
Found at i:29128 original size:33 final size:34
Alignment explanation
Indices: 29073--29140 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
29063 AGGACCGATC
29073 TAATAACCTCATCTCATGGTCCTCAAAATTCAGAT
1 TAATAACCTCA-CTCATGGTCCTCAAAATTCAGAT
29108 TAATAACCTCA-TCATGGTCCTCAAAATTCAGAT
1 TAATAACCTCACTCATGGTCCTCAAAATTCAGAT
29141 CACCATGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 22 0.67
35 11 0.33
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (34 bp):
TAATAACCTCACTCATGGTCCTCAAAATTCAGAT
Found at i:30335 original size:33 final size:33
Alignment explanation
Indices: 30297--30387 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 33
30287 AGATAATCGT
* *
30297 TTAAATTAAAATAAATTAATATATTATTTA-TAA
1 TTAAATTAAAATAAAATAAAATA-TATTTACTAA
* * *
30330 TTAAATTTATATAAAATAAAATATATTTACTAC
1 TTAAATTAAAATAAAATAAAATATATTTACTAA
*
30363 TTAATTTAAATATAAAATATAAATA
1 TTAAATTAAA-ATAAAATA-AAATA
30388 ATAAAACATA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
32 6 0.13
33 28 0.60
34 8 0.17
35 5 0.11
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (33 bp):
TTAAATTAAAATAAAATAAAATATATTTACTAA
Found at i:33413 original size:2 final size:2
Alignment explanation
Indices: 33406--33440 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33396 ACTTGTTTAC
33406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33441 CTAATGACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37855 original size:4 final size:4
Alignment explanation
Indices: 37840--40498 Score: 3834
Period size: 4 Copynumber: 680.5 Consensus size: 4
37830 ACTCAAACCC
37840 ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
37886 ACAT ACAT ACAT ACAT ACAT AC-T A-AT AC-- ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
37930 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
37978 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38025 ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38071 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38118 ACAT ACAT -CAT ACAT ACAT ACAT ACAT ACA- ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
38164 ACAT ACAT ACAT ACAT ACAT ACAT ATAC ATAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38212 ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
38258 ACAT AC-- ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38303 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
38349 ACAT ACAT ACAT ACAT ACAT ACAC ATAC ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38397 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* ** * * * ***
38445 ACAT ACAT ACAT ACAT ACAT ACTTT AGTT AC-G AGAT TCAT A-AT TGTT
1 ACAT ACAT ACAT ACAT ACAT AC-AT ACAT ACAT ACAT ACAT ACAT ACAT
* * ** * * ** * ** * *
38492 TCAT TCAAT A-AT GTTAT GTC-T A-AA ATTT AAATTT GA-ATT ATTT CCTT
1 ACAT AC-AT ACAT -ACAT -ACAT ACAT ACAT ACA--T -ACA-T ACAT ACAT
* ** * * * * * * *
38539 GATAGT TGAG AAAT A-AGC CCAA AC-T -CAA AC-T -CAA ACCCAT ACAT
1 -ACA-T ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT A--CAT ACAT
*
38583 ACAT ACAT ACAT ACAT -CAT ACAT ACAT ACCAT ACAT ACCT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT
38631 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38679 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
38727 AC-- ACAT ACAT ACAT ACAT ACAT ACAA ACA- ACA- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38771 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACACT ACAT -CAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT
38819 ACA- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38865 AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA- ACAT ACAT ACAGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T
38911 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACATT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT
*
38960 ACAT ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACA- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
39007 ACAT ACAT ACAT ACAT ACAT ACATT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT ACAT
39056 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
39100 ACAT ACAT A-AT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
39146 ACAT ACAT ACAT ACAT ACAT -C-T ACAAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT AC-AT ACAT ACAT ACAT ACAT ACAT
39193 ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACCTAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-C-AT ACAT ACAT
*
39242 ACAT ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
39290 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -CCT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
39337 ACAT AC-T ACAT ACA- A-AC ACAT ACAT ACAT ACAT ACAC ATCCT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT
39383 A-AT ACAT ACAT ACAT ACAT -C-T ACAT ACAT ACAT A-AT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
39427 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
39474 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA- ACAT -CCT AC-T
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
39519 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT
39568 ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT --AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
39613 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
39661 ACAT ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-T ACCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT
39709 ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT ACCAT AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT
39756 ACA- ACAT ACAT ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
39802 ACAT ACAT ACAT ACCAT AC-T ACAT ACAT ACAT ACAT ACAT ACAT ACCAT
1 ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A-CAT
39851 ACAT ACAT ACAT ACAT ACAT ACAGAT ACAT ACAT ACAT AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT AC--AT ACAT ACAT ACAT ACAT ACAT ACAT
*
39900 ACAT ACAT AC-- ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
39946 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAC ATAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
39994 ACAT ACAT -CAT -CA- ACAT ACAT ACAT AC-T ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
40038 ACAT ACAT ATAC ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAAC ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-AT ACAT
*
40087 ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAG AC-T ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40132 ACAT ACCAT AC-T ACAT ACAT ACA- ACAT ACAT ACAT AC-T ACAT ACAT
1 ACAT A-CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40178 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40226 ACAT ACAT ACAT ACAT -CAT ACAT ACAT AC-- ACAT ACAT ACAT ACA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40270 ACA- ACAT ACAT ACA- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40316 ACAT ACAT A-AT AC-T ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40360 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
40408 ACAT ACAT ACAT ACAT ACAT ATAAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT ACAT
40457 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
40499 TTTAGTTACG
Statistics
Matches: 2445, Mismatches: 88, Indels: 244
0.88 0.03 0.09
Matches are distributed among these distances:
2 33 0.01
3 155 0.06
4 2176 0.89
5 67 0.03
6 13 0.01
7 1 0.00
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:44855 original size:17 final size:19
Alignment explanation
Indices: 44827--44875 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
44817 TTTATAAGAA
44827 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
44845 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
44864 CACCGATGCACT
1 CATCGATGCACT
44876 AAGGTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:52816 original size:30 final size:30
Alignment explanation
Indices: 52780--52837 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
52770 ACCTAAATGG
52780 AGAGTTCTTTTAATTAATTTTAATATTTGA
1 AGAGTTCTTTTAATTAATTTTAATATTTGA
52810 AGAGTTCTTTTAATTAATTTTAATATTT
1 AGAGTTCTTTTAATTAATTTTAATATTT
52838 AATTAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (30 bp):
AGAGTTCTTTTAATTAATTTTAATATTTGA
Found at i:58200 original size:22 final size:22
Alignment explanation
Indices: 58174--58227 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
58164 GTTGACTTTT
*
58174 TGGTCAAAGTTAAAGTTAACTA
1 TGGTCAAAGTTAAAGTCAACTA
*
58196 TGGTCAAAGTTAAAGTCAACTC
1 TGGTCAAAGTTAAAGTCAACTA
*
58218 TAGTCAAAGT
1 TGGTCAAAGT
58228 CAACAGTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (22 bp):
TGGTCAAAGTTAAAGTCAACTA
Found at i:58244 original size:19 final size:19
Alignment explanation
Indices: 58220--58268 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
58210 GTCAACTCTA
*
58220 GTCAAAGTCAACAGTATGG
1 GTCAAAGTCAACAGTATAG
* * *
58239 GTCAAAATCAACGGTCTAG
1 GTCAAAGTCAACAGTATAG
58258 GTCAAAGTCAA
1 GTCAAAGTCAA
58269 TGATTTAGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (19 bp):
GTCAAAGTCAACAGTATAG
Found at i:63659 original size:20 final size:21
Alignment explanation
Indices: 63634--63680 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
63624 TAATTATTAA
*
63634 AATATTTAAAAT-ATATTATT
1 AATATTTAAAATAATATAATT
**
63654 AATATTTCTAATAATATAATT
1 AATATTTAAAATAATATAATT
63675 AATATT
1 AATATT
63681 ATATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTAAAATAATATAATT
Found at i:64085 original size:22 final size:23
Alignment explanation
Indices: 64050--64095 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
64040 ATTAATAAAT
*
64050 TATTTTAATATTTT-AAAAATAA
1 TATTATAATATTTTGAAAAATAA
* *
64072 TATTATAATTTTTTGATAAATAA
1 TATTATAATATTTTGAAAAATAA
64095 T
1 T
64096 TATTTATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTATAATATTTTGAAAAATAA
Found at i:64968 original size:17 final size:17
Alignment explanation
Indices: 64940--65012 Score: 69
Period size: 17 Copynumber: 4.1 Consensus size: 17
64930 GATACTCAAT
*
64940 TTTATCATTTTAATATTA
1 TTTAT-ATTTTATTATTA
*
64958 TTTATATTTTATTTTTA
1 TTTATATTTTATTATTA
64975 -TTATTATTATTATTTATTA
1 TTTA-TATT-TTA-TTATTA
64994 TTTAT-TATTTATTATTA
1 TTTATAT-TTTATTATTA
65011 TT
1 TT
65013 ACTAAATAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
16 3 0.06
17 22 0.47
18 12 0.26
19 7 0.15
20 3 0.06
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATATTTTATTATTA
Found at i:64978 original size:3 final size:3
Alignment explanation
Indices: 64953--65013 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
64943 ATCATTTTAA
*
64953 TAT TAT T-T ATAT T-T TAT TTT TAT TAT TAT TAT TATT TAT TATT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
64999 TATT TAT TAT TAT TA
1 TA-T TAT TAT TAT TA
65014 CTAAATAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
2 3 0.06
3 37 0.74
4 10 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:64979 original size:23 final size:22
Alignment explanation
Indices: 64938--65008 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 22
64928 AAGATACTCA
*
64938 ATTTTATCATTTTAATATTATTTAT
1 ATTTTAT--TTTTATTATTA-TTAT
64963 ATTTTATTTTTATTATTATTAT
1 ATTTTATTTTTATTATTATTAT
64985 -TATTTATTATTTATTATTTATTAT
1 AT-TTTATT-TTTATTA-TTATTAT
65009 TATTACTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 10 0.24
23 17 0.40
24 7 0.17
25 7 0.17
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTATTTTTATTATTATTAT
Found at i:64993 original size:7 final size:7
Alignment explanation
Indices: 64953--65013 Score: 74
Period size: 7 Copynumber: 8.7 Consensus size: 7
64943 ATCATTTTAA
64953 TATTATT
1 TATTATT
64960 TA-TATTT
1 TATTA-TT
64967 TATT-TT
1 TATTATT
64973 TATTATTAT
1 TATTA-T-T
64982 TATTATT
1 TATTATT
64989 TATTATT
1 TATTATT
64996 TATTATT
1 TATTATT
65003 TATTA-T
1 TATTATT
65009 TATTA
1 TATTA
65014 CTAAATAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
6 14 0.29
7 26 0.53
8 3 0.06
9 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TATTATT
Found at i:65027 original size:36 final size:36
Alignment explanation
Indices: 64953--65028 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
64943 ATCATTTTAA
* * * *
64953 TATTATTTATATTTTATTTTTATTATTATTATTATT
1 TATTATTTATATTTTATTATTATTATAAATAATATT
64989 TATTATTTAT-TATTTATTATTATTACTAAATAAT-TT
1 TATTATTTATAT-TTTATTATTATTA-TAAATAATATT
65025 TATT
1 TATT
65029 TACATTGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 1 0.03
36 28 0.82
37 5 0.15
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (36 bp):
TATTATTTATATTTTATTATTATTATAAATAATATT
Found at i:66343 original size:28 final size:28
Alignment explanation
Indices: 66289--66343 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
66279 TTATTAGTTT
** *
66289 TTATTATTTTTACTTTCATTTATTATAG
1 TTATTATTTAAACTTTCATATATTATAG
66317 TTATTATTTAAACTTT-ATATATATATA
1 TTATTATTTAAACTTTCATATAT-TATA
66344 TATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTATTTAAACTTTCATATATTATAG
Found at i:66377 original size:26 final size:26
Alignment explanation
Indices: 66337--66413 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
66327 AACTTTATAT
*
66337 ATATATATATATATATATATATTTAAA
1 ATATATTTAT-TATATATATATTTAAA
* *
66364 ATAT-TATTATTATAAATATATATAAA
1 ATATAT-TTATTATATATATATTTAAA
*
66390 ATATATTTATT-TAT-TATTTTTAAA
1 ATATATTTATTATATATATATTTAAA
66414 TCCTTTATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 8 0.19
25 2 0.05
26 24 0.57
27 8 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATATTTATTATATATATATTTAAA
Found at i:66395 original size:2 final size:2
Alignment explanation
Indices: 66332--66387 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
66322 ATTTAAACTT
* *
66332 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA -A AA TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
66371 TA T- TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
66388 AAATATATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
1 4 0.09
2 41 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:69542 original size:21 final size:19
Alignment explanation
Indices: 69516--69557 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
69506 CATACATGCA
69516 TTTCATTTGCATCTTTGCATT
1 TTTCATTTGCAT-TTT-CATT
69537 TTTCATTTGCATTTTCATT
1 TTTCATTTGCATTTTCATT
69556 TT
1 TT
69558 GTATTCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 3 0.14
21 12 0.57
ACGTcount: A:0.14, C:0.17, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTCATTTGCATTTTCATT
Found at i:71726 original size:72 final size:72
Alignment explanation
Indices: 71635--71769 Score: 225
Period size: 72 Copynumber: 1.9 Consensus size: 72
71625 ATACAATAAA
71635 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTAGT
71700 CTATTAT
66 CTATTAT
* * * * *
71707 GCTTGAGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTA
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTA
71770 ACCCATTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTAGT
CTATTAT
Found at i:76717 original size:113 final size:113
Alignment explanation
Indices: 76398--77166 Score: 807
Period size: 113 Copynumber: 6.8 Consensus size: 113
76388 CCATCACCCA
* * * *
76398 ATGGATTACCATTGCCAGAGAAAGTTCATAATGA-AAGAACTCATCTGAAGAAAGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
76462 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTG
**
76510 ATGGATCAACATTTCCAGA-AGCGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
**
76574 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACCCG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTG
* * * *
76622 ATGGATTAGCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * * *
76687 TCATAATGAGAAGAGCTTGTTCAACATTTTGC-ATAACTCTATCACAGAAGATAG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTC-ATCAC------TTG
* * *
76741 ATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAA
1 AT--GGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * **
76806 GTT-AT--TGTGAAGAACTTGTTTAACCTTTTGCTCAAATTCATCACTTG
64 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTG
* * * * * * *
76853 ATGGATTAACTTTTCCAAAGAGAGTTCGTAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAAT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* ** *
76918 TCATAATGAGAAGAATTTGTTCAAATATTTTG-TTTGAATTCATCATTTG
66 TCATAATGAGAAGAACTTGTTC-AACCTTTTGCTTT-AATTCATCACTTG
* *
76967 ATGGATCAACTTTTCCAGAG-AAGTTCATAAT--GAAGAACTTATCTGAAG-AGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
** * * * *
77028 TCATAAAAAGAAGATA-TTGTTCAACCTTTTGC-ATGACTCTATCAC-AG
66 TCATAATGAGAAGA-ACTTGTTCAACCTTTTGCTTTAATTC-ATCACTTG
* * ** * *
77075 AAGAGATATATCAACATTTACAGA-AGTGTTCATAATGAGAA-AACTCATTTGAA-AAAGAAGAA
1 ATG-G----ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
77137 GAAGTTCATAATGAGAAGAATTTGTTCAAC
61 GAAGTTCATAATGAGAAGAACTTGTTCAAC
77167 TTTAAGATAA
Statistics
Matches: 550, Mismatches: 77, Indels: 58
0.80 0.11 0.08
Matches are distributed among these distances:
108 6 0.01
109 13 0.02
110 85 0.15
111 31 0.06
112 116 0.21
113 123 0.22
114 80 0.15
115 3 0.01
118 27 0.05
119 7 0.01
120 2 0.00
121 57 0.10
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
ATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTG
Found at i:76887 original size:231 final size:224
Alignment explanation
Indices: 76389--77166 Score: 762
Period size: 231 Copynumber: 3.4 Consensus size: 224
76379 GATTTGAATC
* * * * *
76389 CATCACCCAATGGATTACCATTGCCAGAGAAAGTTCATAATGA-AAGAACTCATCTGAAGAAAGA
1 CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * *
76453 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTATAACTCATCACTAGATGCATCA
** *
76518 ACATTTCCAGAAGCGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
131 ACATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCAT-ATGA
**
76583 GAAGAACTTGTTCAACCTTTTGCTTTAATT
195 GAAGAACTTGTTCAACCTTTTGCTCAAATT
* *
76613 CATCACCCGATGGATTAGCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
76678 AGAAGGAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGC-ATAACTCTATCACAGAAGATAGA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTATAACTC-ATCAC------TAGA
*
76742 TCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAG
124 T--GCATCAACATTTCCAGA-AAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAG
* *
76807 TT-AT-TGTGAAGAACTTGTTTAACCTTTTGCTCAAATT
186 TTCATATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
** * * * *
76844 CATCACTTGATGGATTAACTTTTCCAAAGAGAGTTCGTAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * * * * * *
76909 AGAATAAATTCATAATGAGAAGAATTTGTTCAAATATTTTG-TTTGAATTCATCATTTGATGGAT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTC-AACATTTTGCTAT-AACTCATCACTAGATGCAT
* * * * *
76973 CAACTTTTCCAGAGAAGTTCATAAT--GAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAAA
129 CAACATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCAT-AT
* * *
77035 AAGAAGATA-TTGTTCAACCTTTTG--CATGACT
193 GAGAAGA-ACTTGTTCAACCTTTTGCTCA-AATT
* * * *
77066 CTATCA-CAGAAGAGATATATCAACATTTA-C--AGAAGTGTTCATAATGAGAA-AACTCATTTG
1 C-ATCACCCGATG-G--AT-T-AACA-TTACCAAAGAA-AGTTCATAATGAGAAGAACTCATCTG
* *
77126 AA-AAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
58 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
77167 TTTAAGATAA
Statistics
Matches: 467, Mismatches: 60, Indels: 55
0.80 0.10 0.09
Matches are distributed among these distances:
220 14 0.03
221 19 0.04
222 6 0.01
223 37 0.08
224 95 0.20
225 79 0.17
226 18 0.04
227 4 0.01
228 2 0.00
231 116 0.25
232 13 0.03
233 21 0.04
234 43 0.09
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (224 bp):
CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACATTTTGCTATAACTCATCACTAGATGCATCA
ACATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATATGAG
AAGAACTTGTTCAACCTTTTGCTCAAATT
Found at i:76889 original size:110 final size:112
Alignment explanation
Indices: 76412--77032 Score: 656
Period size: 112 Copynumber: 5.5 Consensus size: 112
76402 ATTACCATTG
*
76412 CCAGAGAAAGTTCATAATGA-AAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-ATGAGAAGA
* ** *
76476 ACTTGTTC-AACCTTTTGCTTTAATTCATCACTTGATGGATCAACATTT
64 ACTTGTTCAAACATTTTGCTCAAATTCATCACTTGATGGATCAACTTTT
*
76524 CCAGA-AGCGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-ATGAGAAGA
* ** ** * * * *
76588 ACTTGTTC-AACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTA
64 ACTTGTTCAAACATTTTGCTCAAATTCATCACTTGATGGATCAACTTTT
*
76636 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGGAGTTCATAATGAGAAGA
1 CCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-ATGAGAAGA
* * * *
76701 GCTTGTTC-AACATTTTG--CATAACTCTATCACAGAAGATAGATCAGCATCAACTTTT
64 ACTTGTTCAAACATTTTGCTCA-AATTC-ATCAC------TTGAT--GGATCAACTTTT
* *
76757 CCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTT-AT-TGTGAAGAA
1 CCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATATGAGAAGAA
* * *
76820 CTTGTT-TAACCTTTTGCTCAAATTCATCACTTGATGGATTAACTTTT
65 CTTGTTCAAACATTTTGCTCAAATTCATCACTTGATGGATCAACTTTT
* * * *
76867 CCAAAGAGAGTTCGTAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATTCATAATGAGAAGA
1 CCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-ATGAGAAGA
* * * ** *
76932 ATTTGTTCAAATATTTTGTTTGAATTCATCATTTGATGGATCAACTTTT
64 ACTTGTTCAAACATTTTGCTCAAATTCATCACTTGATGGATCAACTTTT
*
76981 CCAGAGAAGTTCATAAT--GAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATA
1 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
77033 AAAAGAAGAT
Statistics
Matches: 437, Mismatches: 50, Indels: 47
0.82 0.09 0.09
Matches are distributed among these distances:
109 2 0.00
110 71 0.16
111 29 0.07
112 104 0.24
113 97 0.22
114 40 0.09
118 26 0.06
119 7 0.02
120 4 0.01
121 57 0.13
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATATGAGAAGAAC
TTGTTCAAACATTTTGCTCAAATTCATCACTTGATGGATCAACTTTT
Found at i:77374 original size:3 final size:3
Alignment explanation
Indices: 77368--77417 Score: 82
Period size: 3 Copynumber: 16.0 Consensus size: 3
77358 TTTTTTCATT
77368 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA
77415 TTA
1 TTA
77418 CTAAATAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:77431 original size:26 final size:26
Alignment explanation
Indices: 77373--77434 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
77363 TCATTTTATT
* *
77373 ATTATTA-TTATTATTATTATTATTA
1 ATTATTATTTATTATTATTATAAATA
*
77398 TTTATTATTTATTATTATTACTAAATA
1 ATTATTATTTATTATTATTA-TAAATA
77425 ATT-TTATTTA
1 ATTATTATTTA
77435 CATTACAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 6 0.19
26 19 0.61
27 6 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTATTATTTATTATTATTATAAATA
Found at i:78740 original size:28 final size:27
Alignment explanation
Indices: 78686--78752 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
78676 TTATTAGTTT
** *
78686 TTATTATTTTTACTTTCATTTATTATA
1 TTATTATTTAAACTTTCATATATTATA
78713 GTTATTATTTAAACTTT-ATATA-TATA
1 -TTATTATTTAAACTTTCATATATTATA
78739 TATATATATTTAAA
1 T-TAT-TATTTAAA
78753 ATATTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 12 0.35
28 14 0.41
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (27 bp):
TTATTATTTAAACTTTCATATATTATA
Found at i:78759 original size:28 final size:31
Alignment explanation
Indices: 78705--78778 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 31
78695 TTACTTTCAT
*
78705 TTATTATAGT-TATTATTTAAACTTTA-TA-TA
1 TTATTATA-TATA-TATTTAAAATTTATTATTA
78735 -TA-TATATATATATTTAAAATATTATTATTA
1 TTATTATATATATATTTAAAAT-TTATTATTA
78765 TTATTATATATATA
1 TTATTATATATATA
78779 AATTATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 10 0.27
28 9 0.24
29 4 0.11
30 2 0.05
31 2 0.05
32 10 0.27
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (31 bp):
TTATTATATATATATTTAAAATTTATTATTA
Found at i:78806 original size:48 final size:48
Alignment explanation
Indices: 78754--78846 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 48
78744 ATATTTAAAA
*
78754 TATTATTATTATTATTAT-ATATATAAATTATATTTATT-TATTTTATTT
1 TATTATTATTATTA-AATCATATATAAATTAT-TTTATTCTATTTTATTT
* * *
78802 TATTATTATTTTTAAATCCTTTATAAATTATTTTATTCTATTTTA
1 TATTATTATTATTAAATCATATATAAATTATTTTATTCTATTTTA
78847 ATTAAAGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 8 0.21
48 31 0.79
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (48 bp):
TATTATTATTATTAAATCATATATAAATTATTTTATTCTATTTTATTT
Found at i:82709 original size:6 final size:6
Alignment explanation
Indices: 82644--82707 Score: 83
Period size: 6 Copynumber: 10.7 Consensus size: 6
82634 TTATTGCATT
* * *
82644 TGGGGT TGGGGT TGGGGA TGGGGA TGGGGA TGGGGA TGGGGA TGGGCA
1 TGGGGA TGGGGA TGGGGA TGGGGA TGGGGA TGGGGA TGGGGA TGGGGA
* *
82692 TGGGCA TGGGCA TGGG
1 TGGGGA TGGGGA TGGG
82708 CAGGGTTTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.12, C:0.05, G:0.62, T:0.20
Consensus pattern (6 bp):
TGGGGA
Found at i:85177 original size:22 final size:22
Alignment explanation
Indices: 85147--85190 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
85137 GTAGCATTAT
*
85147 CTAATAAACTTGAAATCCATAA
1 CTAACAAACTTGAAATCCATAA
85169 CTAACAAACTTGAAATCCATAA
1 CTAACAAACTTGAAATCCATAA
85191 TAATAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (22 bp):
CTAACAAACTTGAAATCCATAA
Found at i:89739 original size:18 final size:18
Alignment explanation
Indices: 89716--89750 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89706 ACTGAATATT
89716 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
89734 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
89751 GTATATATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:89762 original size:40 final size:41
Alignment explanation
Indices: 89718--89799 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 41
89708 TGAATATTTG
89718 TCCCGAAGGACCAC-TATGTCCCGAAGGACCACTGTATATA
1 TCCCGAAGGACCACTTATGTCCCGAAGGACCACTGTATATA
* *
89758 TCCCGAAGGACCACTTTATATGTCTCGAAGGACCACTTTATA
1 TCCCGAAGGACCAC--T-TATGTCCCGAAGGACCACTGTATA
89800 ACCCTCGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 14 0.39
44 22 0.61
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
TCCCGAAGGACCACTTATGTCCCGAAGGACCACTGTATATA
Found at i:89764 original size:22 final size:22
Alignment explanation
Indices: 89736--89799 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
89726 GACCACTATG
*
89736 TCCCGAAGGACCACTGTATATA
1 TCCCGAAGGACCACTTTATATA
*
89758 TCCCGAAGGACCACTTTATATG
1 TCCCGAAGGACCACTTTATATA
*
89780 TCTCGAAGGACCACTTTATA
1 TCCCGAAGGACCACTTTATA
89800 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (22 bp):
TCCCGAAGGACCACTTTATATA
Found at i:89806 original size:22 final size:22
Alignment explanation
Indices: 89739--89807 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
89729 CACTATGTCC
* *
89739 CGAAGGACCACTGTATATATCC-
1 CGAAGGACCACTTTATA-ACCCT
***
89761 CGAAGGACCACTTTATATGTCT
1 CGAAGGACCACTTTATAACCCT
89783 CGAAGGACCACTTTATAACCCT
1 CGAAGGACCACTTTATAACCCT
89805 CGA
1 CGA
89808 CTCATGGCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (22 bp):
CGAAGGACCACTTTATAACCCT
Found at i:90828 original size:65 final size:64
Alignment explanation
Indices: 90759--90918 Score: 223
Period size: 65 Copynumber: 2.5 Consensus size: 64
90749 GAATAAATTG
* * * *
90759 AACATCGCATGCATTTTATGTATTGATGCACATACCATGCATCGACGCACTTAGGGT-TTTATGA
1 AACATCGAATGCATTTTATGTATCGATGCACATACCATGCATCGACGCACTCAGGCTATTT-TG-
90823 A
64 A
* * *
90824 AACATCGAATGCATTTGATGTATCGATGGACATACCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTTATGTATCGATGCACATACCATGCATCGACGCACTCAGGCTATTTTGA
*
90888 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTTATGTATCGATGCAC
90919 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 29 0.35
65 52 0.62
66 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGTATCGATGCACATACCATGCATCGACGCACTCAGGCTATTTTGA
Found at i:96785 original size:23 final size:22
Alignment explanation
Indices: 96714--96794 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 22
96704 ACACTTAACA
* *
96714 GTGCATCAATGCATCCCTTTGAAT
1 GTGCATCGATGCA-ACC-TTGAAT
* * *
96738 GTGCATCGATAC-ACCATGAAG
1 GTGCATCGATGCAACCTTGAAT
*
96759 GTGCACCGATGCAAGCCTTGAAT
1 GTGCATCGATGCAA-CCTTGAAT
96782 GTGCATCGATGCA
1 GTGCATCGATGCA
96795 CAGGGCCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 14 0.31
22 3 0.07
23 18 0.40
24 10 0.22
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCAACCTTGAAT
Found at i:99541 original size:65 final size:65
Alignment explanation
Indices: 99439--99599 Score: 227
Period size: 66 Copynumber: 2.5 Consensus size: 65
99429 GGAATAAATT
** * *
99439 AAACATCGAATGCATTTTATGCATCGATGCATTATACCATGCATCGATGCACTCAGGGT-TTTAT
1 AAACATCGAATGCATTTTATGCATCGATGCAACATACCATGCATCGATACACTCAGGCTATTT-T
99503 G
65 G
* * *
99504 AAAACATCGAATGCGTTTGATACATCGATG-AACATACCATGCATCGATACACTCAGGCTATTTT
1 -AAACATCGAATGCATTTTATGCATCGATGCAACATACCATGCATCGATACACTCAGGCTATTTT
99568 G
65 G
99569 AAACATCGAATGCATTTTATGCATCGATGCA
1 AAACATCGAATGCATTTTATGCATCGATGCA
99600 CTCTTAGTGC
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.31
65 28 0.34
66 29 0.35
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (65 bp):
AAACATCGAATGCATTTTATGCATCGATGCAACATACCATGCATCGATACACTCAGGCTATTTTG
Found at i:100779 original size:80 final size:80
Alignment explanation
Indices: 100646--100806 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
100636 GTTATTATAA
*
100646 TACCCATAAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTGATTCCTTTGA
1 TACCCATAAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGA
100711 AAATTACTAATAACT
66 AAATTACTAATAACT
100726 TACCCATAAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGA
1 TACCCATAAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGA
*
100791 AATTTACTAATAACT
66 AAATTACTAATAACT
100806 T
1 T
100807 TCAGGTATTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.43
Consensus pattern (80 bp):
TACCCATAAATTCTTATTTAATTATTTCCTTGTCCAAAGACCCATTTTCCCTTTAATTCCTTTGA
AAATTACTAATAACT
Found at i:121927 original size:2 final size:2
Alignment explanation
Indices: 121922--121955 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
121912 TAGAAAAGTG
121922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121956 TATTAACCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134332 original size:125 final size:125
Alignment explanation
Indices: 134110--134365 Score: 406
Period size: 125 Copynumber: 2.0 Consensus size: 125
134100 AAGTTGTGAT
*
134110 ATGTTGGGGCGCGACTGAACCCACATCATGTTGAAATGACAAGATTCAGACAAAGAAGGCATCAA
1 ATGTTGGGGCGCGACTGAACCCACATCATGATGAAATGACAAGATTCAGACAAAGAAGGCATCAA
* * * * *
134175 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATGAGATA
66 GAATGAGCCTTACAATTTGAGATGATGAGGCATTTTGAAGGCCCGTACCAGAATAAAATA
* **
134235 ATGTTGGGGCGCGACTGAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGA
1 ATGTTGGGGCGCGACTGAACCCACATCATGATGAAATGACAAGATTCAGACAAAGAAGGCATCAA
*
134300 GAATGAGCCTTATAATTTGAGAT-ATTGAGGCATTTTGAAGGCCCGTACCAGAATAAAATA
66 GAATGAGCCTTACAATTTGAGATGA-TGAGGCATTTTGAAGGCCCGTACCAGAATAAAATA
134360 ATGTTG
1 ATGTTG
134366 CGACATTAGT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
124 1 0.01
125 119 0.99
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (125 bp):
ATGTTGGGGCGCGACTGAACCCACATCATGATGAAATGACAAGATTCAGACAAAGAAGGCATCAA
GAATGAGCCTTACAATTTGAGATGATGAGGCATTTTGAAGGCCCGTACCAGAATAAAATA
Found at i:135703 original size:36 final size:36
Alignment explanation
Indices: 135538--135735 Score: 238
Period size: 36 Copynumber: 5.5 Consensus size: 36
135528 GATTGGAGAA
*
135538 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
*
135574 AAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * *
135610 AATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
135646 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * *
135682 AAAGCATCTTAAGTCTTCACC--AAAAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAA-TAGTGAAGC
* *
135717 AGATCCATTTTAAGCCTTC
1 A-AACCATCTTAAGCCTTC
135736 TCAGAAGAGT
Statistics
Matches: 141, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
34 2 0.01
35 10 0.07
36 129 0.91
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (36 bp):
AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
Found at i:135732 original size:108 final size:107
Alignment explanation
Indices: 135538--135735 Score: 263
Period size: 108 Copynumber: 1.8 Consensus size: 107
135528 GATTGGAGAA
* * *
135538 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAATA
1 AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC-GAAAATA
135603 GTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
65 GTGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
* * * * *
135646 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAAGCATCTTAAGTCTTCACC-AAAAGTA
1 AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGAAAA-TA
* * *
135710 GTGAAGCAGATCCATTTTAAGCCTTC
65 GTGAAGCA-ATCAATCTGAAGCCTTC
135736 TCAGAAGAGT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 3 0.04
107 10 0.13
108 64 0.83
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (107 bp):
AAACCATCATAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGAAAATAG
TGAAGCAATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
Found at i:136182 original size:51 final size:51
Alignment explanation
Indices: 136105--136601 Score: 510
Period size: 51 Copynumber: 9.5 Consensus size: 51
136095 GTGAAGCAAA
* * * *
136105 TGAAGATTATTTGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * *
136157 TGAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCATTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC-GTT
* * * * *
136209 TCAGAAGATCATTCAAGTTCTATACTTCCTTAAAGAAAGCGGGAGCGAACCCGTG
1 T--GAAGAT-TTTCGAGTTCTATAC-TCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * *
136264 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * * *
136315 TGAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTG
1 TGAAGA-TTTTC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * *
136368 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * * *
136419 TGAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTG
1 TGAAGA-TTTTC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * * * *
136472 TGAAGATATCCGAGTTCCATACTCCTTAATGAAAGAAGGAGCGAACCCGTT
1 TGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* *
136523 TGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGT
1 TGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC--GT-T
136577 TGAAGATTGTTCGAG-TCTTATACTC
1 TGAAGATT-TTCGAGTTC-TATACTC
136602 TCTGAAACGA
Statistics
Matches: 367, Mismatches: 64, Indels: 25
0.80 0.14 0.05
Matches are distributed among these distances:
51 184 0.50
52 28 0.08
53 89 0.24
54 16 0.04
55 28 0.08
56 22 0.06
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (51 bp):
TGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
Found at i:136377 original size:104 final size:104
Alignment explanation
Indices: 136116--136570 Score: 641
Period size: 104 Copynumber: 4.4 Consensus size: 104
136106 GAAGATTATT
* * * *
136116 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATTTTCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
* * * * * *
136181 CCTGAAGAAAGAGGGAGAGAACCCATTTTCAGAAGATCAT-TC
66 CTTAAAGAAAGAAGGAGCGAACCC-GTTT--GAAGA-GATGTC
* * * * *
136223 -AAGTTCTATACTTCCTTAAAGAAAGCGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACT
1 TGAGTTCCATAC-TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACT
136287 CCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
65 CCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
136327 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
136392 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
66 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* *
136431 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
*
136496 CTTAATGAAAGAAGGAGCGAACCCGTTTG-A-AGATGT-
66 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
* *
136532 TCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCC
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCC
136571 ATTTGTTGAA
Statistics
Matches: 319, Mismatches: 25, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
101 1 0.00
102 41 0.13
103 3 0.01
104 187 0.59
105 9 0.03
106 12 0.04
107 66 0.21
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (104 bp):
TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
Found at i:136495 original size:155 final size:154
Alignment explanation
Indices: 136116--136575 Score: 593
Period size: 155 Copynumber: 2.9 Consensus size: 154
136106 GAAGATTATT
* * *
136116 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATTTTCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATATCCGAGTTCCATACTC
* * *
136181 CCT-GAAGAAAGAGGGAGAGAACCCATTTTCAGAAGATCATTCAAGTTCTATACTTCCTTAAAGA
66 CCTAG-AGAAAGAGGGAGCGAACCC-GTTT--GAAGAT-ATTCGAGTTCTATAC-TCCTTAAAGA
* * *
136245 AAGCGGGAGCGAACCCGTGTGAAGATATGC
125 AAGAGGGAGCGAACCCGTTTGAAGAGATGC
* * * * *
136275 -GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATAC
1 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTG-A-AGATATCCGAGTTCCATAC
* *
136339 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
64 TCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGA
*
136404 AGGAGCGAACCCGTTTGAAGAGATGTC
129 GGGAGCGAACCCGTTTGAAGAGATG-C
* *
136431 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATATCCGAGTTCCATACTC
* * * *
136496 CTTA-ATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
66 CCTAGA-GAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAG
*
136560 GGAGCGAACCCATTTG
130 GGAGCGAACCCGTTTG
136576 TTGAAGATTG
Statistics
Matches: 264, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
154 1 0.00
155 124 0.47
156 15 0.06
157 43 0.16
158 39 0.15
159 3 0.01
160 38 0.14
161 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (154 bp):
TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGATATCCGAGTTCCATACTC
CCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTCCTTAAAGAAAGAGG
GAGCGAACCCGTTTGAAGAGATGC
Found at i:140892 original size:24 final size:24
Alignment explanation
Indices: 140865--140910 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
140855 ATTGGTTGAT
*
140865 GATAAAATTTTCTTCAACTTATAA
1 GATAAAATTTTCTTCAAATTATAA
**
140889 GATAATTTTTTCTTCAAATTAT
1 GATAAAATTTTCTTCAAATTAT
140911 TTAGCTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (24 bp):
GATAAAATTTTCTTCAAATTATAA
Found at i:141759 original size:28 final size:28
Alignment explanation
Indices: 141728--141782 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
141718 TTAGTAAACA
* *
141728 TTTATTTATTTAATTTTT-TTATTATTAG
1 TTTATATA-TTAATTTTTGTAATTATTAG
141756 TTTATATATTAATTTTTGTAATTATTA
1 TTTATATATTAATTTTTGTAATTATTA
141783 ATAATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTATATATTAATTTTTGTAATTATTAG
Found at i:143689 original size:6 final size:6
Alignment explanation
Indices: 143670--143717 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
143660 CGATGACTAC
* * * * *
143670 GATGAT GATAAT GATGAT GATAAT GATAAT GATGGT GATGAT AATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
143718 AGTGAGGAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (6 bp):
GATGAT
Found at i:143690 original size:15 final size:15
Alignment explanation
Indices: 143670--143717 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
143660 CGATGACTAC
* *
143670 GATGATGATAATGAT
1 GATGATGATGATAAT
*
143685 GATGATAATGATAAT
1 GATGATGATGATAAT
*
143700 GATGGTGATGATAAT
1 GATGATGATGATAAT
143715 GAT
1 GAT
143718 AGTGAGGAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
GATGATGATGATAAT
Found at i:143708 original size:12 final size:12
Alignment explanation
Indices: 143670--143702 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
143660 CGATGACTAC
143670 GATGATGATAAT
1 GATGATGATAAT
143682 GATGATGATAAT
1 GATGATGATAAT
*
143694 GATAATGAT
1 GATGATGAT
143703 GGTGATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (12 bp):
GATGATGATAAT
Found at i:144420 original size:13 final size:13
Alignment explanation
Indices: 144397--144428 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
144387 TGAATAGTTC
144397 TTCTT-TATCGTT
1 TTCTTGTATCGTT
144409 TTCTTGTATCGTT
1 TTCTTGTATCGTT
144422 TTCTTGT
1 TTCTTGT
144429 TTAATTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.06, C:0.16, G:0.12, T:0.66
Consensus pattern (13 bp):
TTCTTGTATCGTT
Found at i:146415 original size:14 final size:14
Alignment explanation
Indices: 146396--146428 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
146386 TTAGGCACAT
*
146396 CCGTAAATTTTGGC
1 CCGTAAATTCTGGC
146410 CCGTAAATTCTGGC
1 CCGTAAATTCTGGC
146424 CCGTA
1 CCGTA
146429 TATTGCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (14 bp):
CCGTAAATTCTGGC
Found at i:147626 original size:30 final size:30
Alignment explanation
Indices: 147590--147683 Score: 172
Period size: 30 Copynumber: 3.1 Consensus size: 30
147580 ATCAAAGATA
147590 AGAGGATTGTT-TGGTGATGTTTACGGGTTG
1 AGAGGATTGTTGT-GTGATGTTTACGGGTTG
147620 AGAGGATTGTTGTGTGATGTTTACGGGTTG
1 AGAGGATTGTTGTGTGATGTTTACGGGTTG
147650 AGAGGATTGTTGTGTGATGTTTACGGGTTG
1 AGAGGATTGTTGTGTGATGTTTACGGGTTG
147680 AGAG
1 AGAG
147684 CGTATTATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.40, T:0.38
Consensus pattern (30 bp):
AGAGGATTGTTGTGTGATGTTTACGGGTTG
Found at i:148396 original size:16 final size:15
Alignment explanation
Indices: 148374--148458 Score: 54
Period size: 16 Copynumber: 5.5 Consensus size: 15
148364 TTTTAAATTA
148374 TAAATATAAAATAAT
1 TAAATATAAAATAAT
148389 TCAAATATTCAAAA-AAT
1 T-AAATA-T-AAAATAAT
148406 TAAATAT-AAATAATAT
1 TAAATATAAAAT-A-AT
* *
148422 TAAAAATTAAA-AA-
1 TAAATATAAAATAAT
148435 TAAATTATTAAAA-AAT
1 TAAA-TA-TAAAATAAT
148451 TAAATATA
1 TAAATATA
148459 CATATTAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 21
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.12
14 4 0.07
15 12 0.21
16 22 0.39
17 8 0.14
18 4 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATATAAAATAAT
Found at i:148417 original size:22 final size:21
Alignment explanation
Indices: 148391--148468 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 21
148381 AAAATAATTC
148391 AAATATTCAAAAAATTAAATAT
1 AAATATT-AAAAAATTAAATAT
* *
148413 AAATAATATTAAAAATTAAAAAT
1 AAAT-AT-TAAAAAATTAAATAT
148436 AAATTATTAAAAAATTAAATAT
1 AAA-TATTAAAAAATTAAATAT
*
148458 ACATATTAAAA
1 AAATATTAAAA
148469 CTATTATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
21 8 0.17
22 19 0.40
23 19 0.40
24 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATTAAAAAATTAAATAT
Found at i:148430 original size:23 final size:22
Alignment explanation
Indices: 148394--148468 Score: 91
Period size: 23 Copynumber: 3.4 Consensus size: 22
148384 ATAATTCAAA
148394 TATTCAAAAAATTAAATATAAAT
1 TATT-AAAAAATTAAATATAAAT
*
148417 AATATT-AAAAATTAAAAATAAAT
1 --TATTAAAAAATTAAATATAAAT
*
148440 TATTAAAAAATTAAATATACA-
1 TATTAAAAAATTAAATATAAAT
148461 TATTAAAA
1 TATTAAAA
148469 CTATTATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 12 0.26
22 14 0.30
23 16 0.35
25 4 0.09
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (22 bp):
TATTAAAAAATTAAATATAAAT
Found at i:148925 original size:14 final size:14
Alignment explanation
Indices: 148906--148971 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 14
148896 ATTATGTGTG
148906 TATATTATTTATAA
1 TATATTATTTATAA
*
148920 TATATTTTTTA-AA
1 TATATTATTTATAA
* *
148933 AATATATATTTTTAAA
1 TATAT-TATTTAT-AA
*
148949 TATATATATATATATA
1 TATAT-TATTTATA-A
148965 TATATTA
1 TATATTA
148972 ATAATTTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
13 6 0.15
14 14 0.34
15 3 0.07
16 18 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTATTTATAA
Found at i:148946 original size:16 final size:16
Alignment explanation
Indices: 148918--148957 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
148908 TATTATTTAT
148918 AATATAT-TTTTTAAA
1 AATATATATTTTTAAA
148933 AATATATATTTTTAAA
1 AATATATATTTTTAAA
*
148949 TATATATAT
1 AATATATAT
148958 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATATATTTTTAAA
Found at i:149099 original size:16 final size:15
Alignment explanation
Indices: 149080--149114 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
149070 AGTAATTTAA
*
149080 TTTTTATTTTTAATAT
1 TTTTTATATTTAAT-T
149096 TTTTTATATTTAATT
1 TTTTTATATTTAATT
149111 TTTT
1 TTTT
149115 AAATATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATATTTAATT
Found at i:149131 original size:25 final size:25
Alignment explanation
Indices: 149103--149168 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
149093 TATTTTTTAT
*
149103 ATTTAATTTTTTAAATATTT-GAATA
1 ATTTAATTTTTTAAA-ATTTAAAATA
* *
149128 ATTTCA-TATTTAAAATTTAAAATA
1 ATTTAATTTTTTAAAATTTAAAATA
149152 ACTTTAATTTTTTAAAA
1 A-TTTAATTTTTTAAAA
149169 AAAATTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 4 0.12
24 12 0.36
25 9 0.27
26 8 0.24
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTAATTTTTTAAAATTTAAAATA
Found at i:149302 original size:21 final size:21
Alignment explanation
Indices: 149276--149316 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
149266 AGTCACTATA
149276 GACTGTCACGTTAGCACCGTG
1 GACTGTCACGTTAGCACCGTG
* *
149297 GACTGTCATGTTTGCACCGT
1 GACTGTCACGTTAGCACCGT
149317 AAACTGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (21 bp):
GACTGTCACGTTAGCACCGTG
Found at i:149322 original size:21 final size:21
Alignment explanation
Indices: 149277--149322 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
149267 GTCACTATAG
**
149277 ACTGTCACGTTAGCACCGTGG
1 ACTGTCACGTTAGCACCGTAA
* *
149298 ACTGTCATGTTTGCACCGTAA
1 ACTGTCACGTTAGCACCGTAA
149319 ACTG
1 ACTG
149323 CCATATTGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (21 bp):
ACTGTCACGTTAGCACCGTAA
Found at i:153303 original size:20 final size:20
Alignment explanation
Indices: 153278--153354 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
153268 TTGGTTCATG
*
153278 GAATGTAAGATTATCAGTAA
1 GAATGTAAGATTATCAGTGA
* *
153298 GAATGTAAGATTATCATTGG
1 GAATGTAAGATTATCAGTGA
*
153318 GAATGTAAGATTACCAGTGA
1 GAATGTAAGATTATCAGTGA
* *
153338 GAATATAAAATTATCAG
1 GAATGTAAGATTATCAG
153355 AGAATATGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (20 bp):
GAATGTAAGATTATCAGTGA
Found at i:153341 original size:40 final size:40
Alignment explanation
Indices: 153277--153353 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
153267 TTTGGTTCAT
* * *
153277 GGAATGTAAGATTATCAGTAAGAATGTAAGATTATCATTG
1 GGAATGTAAGATTACCAGTAAGAATATAAAATTATCATTG
*
153317 GGAATGTAAGATTACCAGTGAGAATATAAAATTATCA
1 GGAATGTAAGATTACCAGTAAGAATATAAAATTATCA
153354 GAGAATATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (40 bp):
GGAATGTAAGATTACCAGTAAGAATATAAAATTATCATTG
Found at i:153553 original size:2 final size:2
Alignment explanation
Indices: 153548--153575 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
153538 TAAATTCATA
153548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
153576 TTTATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:154761 original size:14 final size:14
Alignment explanation
Indices: 154742--154772 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
154732 GTGGAATTCT
154742 AAATATTTAAATAA
1 AAATATTTAAATAA
*
154756 AAATATTTATATAA
1 AAATATTTAAATAA
154770 AAA
1 AAA
154773 ATCATCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATATTTAAATAA
Found at i:155024 original size:21 final size:20
Alignment explanation
Indices: 154938--155095 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
154928 AAATGACCAA
**
154938 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
154957 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
154977 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
154997 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
155018 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
155039 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
155059 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
155080 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
155096 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:155124 original size:20 final size:20
Alignment explanation
Indices: 155063--155291 Score: 237
Period size: 20 Copynumber: 11.4 Consensus size: 20
155053 GATTTTCCAG
* ** *
155063 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
155083 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
155103 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
155123 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
155143 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
155163 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
155183 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
155203 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
155223 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
155243 AATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
155263 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
155283 AATCACAAC
1 AATCGCAAC
155292 ACTGAAATTT
Statistics
Matches: 181, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
19 2 0.01
20 177 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:155999 original size:24 final size:24
Alignment explanation
Indices: 155960--156006 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
155950 AAATTTGGTC
155960 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
155984 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
156007 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:156198 original size:12 final size:12
Alignment explanation
Indices: 156181--156205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
156171 ATATAATCCT
156181 GAAGAAGAAAAA
1 GAAGAAGAAAAA
156193 GAAGAAGAAAAA
1 GAAGAAGAAAAA
156205 G
1 G
156206 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:158569 original size:19 final size:19
Alignment explanation
Indices: 158500--158656 Score: 190
Period size: 19 Copynumber: 8.7 Consensus size: 19
158490 GCAACGAGAG
158500 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
158519 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
158533 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
158553 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
158572 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
158591 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
158605 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
158625 AATCGCAATGAGAAATGAA
1 AATCGCAATGCGAAATGAA
*
158644 AATCGCATTGCGA
1 AATCGCAATGCGA
158657 TTCTCTCGTT
Statistics
Matches: 119, Mismatches: 7, Indels: 24
0.79 0.05 0.16
Matches are distributed among these distances:
14 22 0.18
15 1 0.01
16 2 0.02
17 4 0.03
19 62 0.52
20 28 0.24
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:158593 original size:72 final size:72
Alignment explanation
Indices: 158500--158656 Score: 262
Period size: 72 Copynumber: 2.2 Consensus size: 72
158490 GCAACGAGAG
*
158500 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGCGGAAATGAAAATCGCAATGA
158564 GAAATGAA
65 GAAATGAA
* *
158572 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGAG
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATGAAAATCGCAATGAG
158637 AAATGAA
66 AAATGAA
*
158644 AATCGCATTGCGA
1 AATCGCAATGCGA
158657 TTCTCTCGTT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
72 79 0.99
73 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGGAAATGAAAATCGCAATGAG
AAATGAA
Found at i:158621 original size:53 final size:52
Alignment explanation
Indices: 158486--158650 Score: 205
Period size: 53 Copynumber: 3.1 Consensus size: 52
158476 CGGAAATTAC
*
158486 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
158533 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
158591 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGAGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
158644 AATCGCA
1 AATCGCA
158651 TTGCGATTCT
Statistics
Matches: 102, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
47 8 0.08
49 1 0.01
50 1 0.01
52 14 0.14
53 62 0.61
55 2 0.02
56 1 0.01
58 13 0.13
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:158726 original size:53 final size:52
Alignment explanation
Indices: 158646--158763 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 52
158636 GAAATGAAAA
158646 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
158699 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
158751 TCCGCATTGCGAT
1 T-CGCATTGCGAT
158764 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:158771 original size:20 final size:19
Alignment explanation
Indices: 158665--158763 Score: 136
Period size: 20 Copynumber: 5.4 Consensus size: 19
158655 GATTCTCTCG
158665 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
158685 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
158704 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
158718 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
158737 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
158757 TTGCGAT
1 TTGCGAT
158764 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 25 0.35
20 26 0.37
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:158889 original size:14 final size:14
Alignment explanation
Indices: 158870--158906 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
158860 CATCAATTAC
158870 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
158884 ACAAATCATCTTTT
1 ACAAATCAACTTTT
158898 ACAAATCAA
1 ACAAATCAA
158907 TTAACAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:160868 original size:19 final size:19
Alignment explanation
Indices: 160826--160998 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
160816 TAGTTTACTT
* *
160826 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
160846 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
160865 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
160884 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
160903 TCGCAACGCGAACTGAAAA
1 TCGCAACGCGAAATGAAAA
*
160922 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
160936 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
160955 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
160969 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
160988 TCGCAATGCGA
1 TCGCAACGCGA
160999 TTTGGTTTCG
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.06
17 6 0.05
18 1 0.01
19 81 0.64
20 12 0.10
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:160939 original size:14 final size:14
Alignment explanation
Indices: 160920--160976 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
160910 GCGAACTGAA
*
160920 AATCGCAACGACAG
1 AATCGCAACGAAAG
160934 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
160951 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
160967 AATCGCAACG
1 AATCGCAACG
160977 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:160947 original size:33 final size:33
Alignment explanation
Indices: 160901--160993 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
160891 GCGAAACCAA
*
160901 AATCGCAACGCGAACTGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
160934 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
160967 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
160994 TGCGATTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:161039 original size:33 final size:33
Alignment explanation
Indices: 160994--161116 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
160984 AAAATCGCAA
*
160994 TGCGA-TTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
161026 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
161059 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
161092 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
161117 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
32 5 0.06
33 65 0.79
34 12 0.15
ACGTcount: A:0.09, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:161047 original size:19 final size:18
Alignment explanation
Indices: 160994--161084 Score: 81
Period size: 14 Copynumber: 5.4 Consensus size: 18
160984 AAAATCGCAA
*
160994 TGCGATTTGGTTTCGCGT
1 TGCGATTTTGTTTCGCGT
161012 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
161026 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
161045 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
161059 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
161078 TGCGATT
1 TGCGATT
161085 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
14 23 0.39
15 1 0.02
16 2 0.03
17 2 0.03
18 10 0.17
19 21 0.36
ACGTcount: A:0.08, C:0.18, G:0.29, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:161094 original size:14 final size:14
Alignment explanation
Indices: 161042--161098 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
161032 TTTGGTTTCG
*
161042 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
161056 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
161075 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
161089 CGTTGCGATT
1 CGTTGCGATT
161099 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:163057 original size:20 final size:20
Alignment explanation
Indices: 163026--163089 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
163016 TTTTGGTTGA
163026 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
163046 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
163066 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
163087 AAT
1 AAT
163090 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:163078 original size:21 final size:21
Alignment explanation
Indices: 163024--163088 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
163014 TCTTTTGGTT
163024 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
163045 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
163065 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
163086 GAA
1 GAA
163089 TCGCAATGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:163092 original size:14 final size:14
Alignment explanation
Indices: 163073--163129 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
163063 GAGAAATGAA
163073 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
163087 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
163106 AATCGCAACGAGAG
1 AATCGCAACGAGAG
163120 AATCGCAACG
1 AATCGCAACG
163130 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:163103 original size:33 final size:33
Alignment explanation
Indices: 163024--163146 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
163014 TCTTTTGGTT
*
163024 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
*
163065 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
163098 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
163131 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
163147 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
33 49 0.62
35 6 0.08
38 1 0.01
40 1 0.01
41 22 0.28
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:163111 original size:19 final size:19
Alignment explanation
Indices: 163087--163151 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
163077 GCAACGAGAG
163087 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
163106 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
163120 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
163139 AATCGCAATGCGA
1 AATCGCAATGCGA
163152 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:163195 original size:33 final size:33
Alignment explanation
Indices: 163147--163227 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
163137 AAAATCGCAA
**
163147 TGCGATTTTGGTTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
163180 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
163213 TACGATTTTCATTTC
1 TGCGATTTTCATTTC
163228 TCTCGTTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:163230 original size:21 final size:21
Alignment explanation
Indices: 163204--163280 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
163194 CGCGTTGCGA
*
163204 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
163225 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
163247 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
163267 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
163281 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.19
21 29 0.62
22 9 0.19
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:163402 original size:33 final size:33
Alignment explanation
Indices: 163360--163430 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
163350 AATACTAACT
163360 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* * *
163393 TGAAAATCGCAATGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
163426 TGAAA
1 TGAAA
163431 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:163813 original size:20 final size:20
Alignment explanation
Indices: 163788--163980 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
163778 CTTTAAAAAT
163788 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
163808 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
163828 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
163849 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
163869 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
163889 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
163909 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
163929 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
163949 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
163969 CGCGTTGCGATT
1 CGCGTTGCGATT
163981 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:167482 original size:21 final size:19
Alignment explanation
Indices: 167458--167496 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
167448 ATACGTCTGA
167458 TTATCTAATTGGATATTAAAT
1 TTATCTAATT-GA-ATTAAAT
*
167479 TTATTTAATTGAATTAAA
1 TTATCTAATTGAATTAAA
167497 ATGATGACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (19 bp):
TTATCTAATTGAATTAAAT
Found at i:167973 original size:15 final size:15
Alignment explanation
Indices: 167955--167998 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
167945 TTAACATATG
167955 ATTAAAATAATATTA
1 ATTAAAATAATATTA
*
167970 ATTAAAATAAAATT-
1 ATTAAAATAATATTA
*
167984 -TTAAAATTATATTA
1 ATTAAAATAATATTA
167998 A
1 A
167999 AACAAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAAATAATATTA
Found at i:170581 original size:54 final size:54
Alignment explanation
Indices: 170518--170625 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
170508 AGCACTATGT
170518 GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGGGGTGCATATGATAAAA
1 GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGGGGTGCATATGATAAAA
* *
170572 GGCATAAAAGGTGTCAAACTGATTATATAGCACTGTGGGGTGCATATGATAAAA
1 GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGGGGTGCATATGATAAAA
170626 ATGCACTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (54 bp):
GGCATAAAAGGTGCCAAACTGATTATATAGCACTATGGGGTGCATATGATAAAA
Found at i:170670 original size:26 final size:26
Alignment explanation
Indices: 170641--170708 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
170631 CTAAATGTGC
*
170641 AAGTGATATGTGGCACTTCCGAGTGA
1 AAGTGATATGTGGCACTTACGAGTGA
*
170667 AAGTGATATGTGGCACTTACGAGTGC
1 AAGTGATATGTGGCACTTACGAGTGA
*
170693 AAGAGATATGT-GCACT
1 AAGTGATATGTGGCACT
170709 ATTTGTGCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 5 0.13
26 34 0.87
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (26 bp):
AAGTGATATGTGGCACTTACGAGTGA
Found at i:170933 original size:17 final size:17
Alignment explanation
Indices: 170911--170947 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
170901 AAATTAAAAG
170911 TAAAATATATAGAACAA
1 TAAAATATATAGAACAA
* *
170928 TAAAATATATGGTACAA
1 TAAAATATATAGAACAA
170945 TAA
1 TAA
170948 GTGAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (17 bp):
TAAAATATATAGAACAA
Found at i:171004 original size:22 final size:22
Alignment explanation
Indices: 170955--171004 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
170945 TAAGTGAAAT
* * * *
170955 AATATAGTAAAAGATACAGTAT
1 AATATAGGAAAAAATACAATAA
*
170977 AGTATAGGAAAAAATACAATAA
1 AATATAGGAAAAAATACAATAA
170999 AATATA
1 AATATA
171005 TAGTACAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.24
Consensus pattern (22 bp):
AATATAGGAAAAAATACAATAA
Found at i:171022 original size:34 final size:33
Alignment explanation
Indices: 170924--171022 Score: 81
Period size: 34 Copynumber: 2.9 Consensus size: 33
170914 AATATATAGA
* * *
170924 ACAATAAAATATATGGTACAATAAGTGAAATAAT
1 ACAATAAAATATATAGTACAATAA-AGAAAAAAT
* * * * * * *
170958 ATAGTAAAAGATACAGTATAGTATAGGAAAAAAT
1 ACAATAAAATATATAGTACAATA-AAGAAAAAAT
170992 ACAATAAAATATATAGTACAATACAAGAAAA
1 ACAATAAAATATATAGTACAATA-AAGAAAA
171023 GGAACAATAC
Statistics
Matches: 47, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
34 46 0.98
35 1 0.02
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.23
Consensus pattern (33 bp):
ACAATAAAATATATAGTACAATAAAGAAAAAAT
Found at i:172921 original size:23 final size:23
Alignment explanation
Indices: 172895--172942 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
172885 TTCGGTACAT
172895 TTCTACGCGGCACTACGGTGCAA
1 TTCTACGCGGCACTACGGTGCAA
* *
172918 TTCTACGTGGCACTTCGGTGCAA
1 TTCTACGCGGCACTACGGTGCAA
172941 TT
1 TT
172943 TATATGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (23 bp):
TTCTACGCGGCACTACGGTGCAA
Found at i:176584 original size:21 final size:21
Alignment explanation
Indices: 176519--176584 Score: 114
Period size: 21 Copynumber: 3.1 Consensus size: 21
176509 ACACTTCACG
176519 ATGCTGATGTGGCAGTCCACA
1 ATGCTGATGTGGCAGTCCACA
*
176540 ATACTGATGTGGCAGTCCACA
1 ATGCTGATGTGGCAGTCCACA
*
176561 ATGCTGATGTGGCAATCCACA
1 ATGCTGATGTGGCAGTCCACA
176582 ATG
1 ATG
176585 ACTTGTGACG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (21 bp):
ATGCTGATGTGGCAGTCCACA
Found at i:176737 original size:23 final size:23
Alignment explanation
Indices: 176684--176736 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
176674 TTTTTAAAAA
*
176684 ATAAAAATAATTTAAACTCCAAAT
1 ATAAAAATAATTAAAACT-CAAAT
*
176708 ATAAAAATACTTAAAACT-AAAT
1 ATAAAAATAATTAAAACTCAAAT
176730 ATAAAAA
1 ATAAAAA
176737 ACCAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 11 0.41
24 16 0.59
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.26
Consensus pattern (23 bp):
ATAAAAATAATTAAAACTCAAAT
Found at i:176806 original size:5 final size:6
Alignment explanation
Indices: 176790--176819 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
176780 ATAATTTTTT
176790 TAAAAA TAAAAA TAAAAA T-AAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
176820 CATGTCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:176812 original size:11 final size:12
Alignment explanation
Indices: 176790--176819 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
176780 ATAATTTTTT
176790 TAAAAATAAAAA
1 TAAAAATAAAAA
176802 TAAAAAT-AAAA
1 TAAAAATAAAAA
176813 TAAAAAT
1 TAAAAAT
176820 CATGTCAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:178119 original size:19 final size:19
Alignment explanation
Indices: 178095--178144 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
178085 GCACTCAAAA
178095 AATATTATTTTATTCA-TTT
1 AATATTATTTTATT-ATTTT
**
178114 AATATTAGATTATTATTTT
1 AATATTATTTTATTATTTT
178133 AATATTATTTTA
1 AATATTATTTTA
178145 ATAAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AATATTATTTTATTATTTT
Found at i:178214 original size:13 final size:13
Alignment explanation
Indices: 178196--178220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
178186 ATAATTTTAA
178196 TAATATTATATTT
1 TAATATTATATTT
178209 TAATATTATATT
1 TAATATTATATT
178221 AATATATACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATATTATATTT
Found at i:178227 original size:13 final size:14
Alignment explanation
Indices: 178181--178224 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
178171 TAATATACAT
* *
178181 ATAATATAATTTTA
1 ATAATATTATATTA
178195 ATAATATTATATT-
1 ATAATATTATATTA
*
178208 TTAATATTATATTA
1 ATAATATTATATTA
178222 ATA
1 ATA
178225 TATACTCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATATTATATTA
Found at i:178370 original size:19 final size:19
Alignment explanation
Indices: 178332--178377 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
178322 TAAAAATGAG
*
178332 TAATATTAATTTATATATT
1 TAATATTAATTAATATATT
178351 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATATATT
*
178370 TAGTATTA
1 TAATATTA
178378 TGTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTAATTAATATATT
Found at i:178384 original size:30 final size:27
Alignment explanation
Indices: 178338--178399 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
178328 TGAGTAATAT
*
178338 TAATTTATATATTTAATATTAATA-TAA
1 TAATTTATATATTTAATA-AAATACTAA
178365 TAATTTAGTATTATGTTAATAAAATACTAA
1 TAATTTA-TA-TAT-TTAATAAAATACTAA
178395 TAATT
1 TAATT
178400 AAAATTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 2 0.07
29 7 0.23
30 14 0.47
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATTTATATATTTAATAAAATACTAA
Found at i:178694 original size:30 final size:30
Alignment explanation
Indices: 178658--178748 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
178648 TTCCCAGAAA
* *
178658 ATGTAATTTATTTTACGTAAAATAGTTTTC
1 ATGTAATTCATTTTACGTAAAATAATTTTC
*
178688 ATGTAATTCATTTTACGTAAAACAATTTTC
1 ATGTAATTCATTTTACGTAAAATAATTTTC
* * * *
178718 AGGTAATCCATTTTACGTAAATTATTTTTC
1 ATGTAATTCATTTTACGTAAAATAATTTTC
178748 A
1 A
178749 GAAAACCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (30 bp):
ATGTAATTCATTTTACGTAAAATAATTTTC
Found at i:180965 original size:85 final size:85
Alignment explanation
Indices: 180818--180994 Score: 264
Period size: 85 Copynumber: 2.1 Consensus size: 85
180808 AATTAATAGT
* * *
180818 TATGCTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGA
1 TATGCTGTAAATTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGATGACAGA
* * *
180883 TATCATTTCTCTCCTTGAGC
66 TAACACTTCTCACCTTGAGC
* *
180903 TATGCTGTAAATTTGACATGCTTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGATGACAGA
1 TATGCTGTAAATTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGATGACAGA
* *
180968 TAACCCTTCTCACCTTGAGT
66 TAACACTTCTCACCTTGAGC
180988 TATGCTG
1 TATGCTG
180995 CACTGGGCTG
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (85 bp):
TATGCTGTAAATTTGACATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGATGACAGA
TAACACTTCTCACCTTGAGC
Found at i:181518 original size:158 final size:158
Alignment explanation
Indices: 181230--181519 Score: 474
Period size: 158 Copynumber: 1.8 Consensus size: 158
181220 ATTGTTTGGC
* * *
181230 TTTAAGTTGGATATCCTTTGTTGTGAAGTTGAAATCCAATCTTTGTTAAGTTGTGTCACTTCGAG
1 TTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTTGTTAAGTTGTGTCACTTCGAG
* *
181295 TTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGACA
66 TCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGACA
181360 GATGCTCCTTCGCTGTGAAGCTGAGCTT
131 GATGCTCCTTCGCTGTGAAGCTGAGCTT
* ***
181388 TTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATTCAATC-TTGTGTAAGTTGTGTTGTTTCGA
1 TTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTTGT-TAAGTTGTGTCACTTCGA
*
181452 GTCCAATATCCTTCGATGTGAAGTTGAAATTTACTCTGAATGAAACTGGAAAGTTGTTTGTTGAC
65 GTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAC
181517 AGA
130 AGA
181520 CAGTTTTTCT
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
157 4 0.03
158 117 0.97
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (158 bp):
TTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTTGTTAAGTTGTGTCACTTCGAG
TCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGACA
GATGCTCCTTCGCTGTGAAGCTGAGCTT
Found at i:183118 original size:11 final size:11
Alignment explanation
Indices: 183096--183129 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
183086 TCTCTTTTTT
183096 ATTTTCTCTTTG
1 ATTTT-TCTTTG
183108 ATTTTTCTTTG
1 ATTTTTCTTTG
183119 ATTTTTTCTTT
1 A-TTTTTCTTT
183130 TTTGTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.74
Consensus pattern (11 bp):
ATTTTTCTTTG
Done.